Status
[March 2018] The Herpotrichia sp. AK1299 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Herpotrichia sp. AK1299 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 52.40 |
| Sequencing read coverage depth | 100.51x |
| # of contigs | 36 |
| # of scaffolds | 36 |
| # of scaffolds >= 2Kbp | 36 |
| Scaffold N50 | 12 |
| Scaffold L50 (Mbp) | 1.99 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 3.01, 2.53, 2.52 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 36829 | 36264 | 98.5% |
| Ests | est.fasta | 98337519 | 98218600 | 99.9% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1816 | 1586 |
| transcript | 1662 | 1446 |
| exon | 582 | 368 |
| intron | 85 | 57 |
| description: | ||
| protein length (aa) | 475 | 392 |
| exons per gene | 2.86 | 2 |
| # of gene models | 15663 |
Collaborators
Jana U'Ren, University of Arizona, AZ
Betsy Arnold, University of Arizona, AZ
Funding
The work conducted by the U.S. Department of Energy Joint Genome
Institute, a DOE Office of Science User Facility, is supported by
the Office of Science of the U.S. Department of Energy under
Contract No. DE-AC02-05CH11231.
